QTLDetection: QTL detection

In vincentgarin/mppSim: Functions for simulation in MPP

QTL detection

Description

Function to perform QTL detection using four types of models: cross-specific, parental, ancestral and bi-allelic. The function save the results of the QTL detection processes in a specified folder and return the detected QTLs.

Usage

QTLDetection(
  mppData,
  mppData_bi,
  par_clu,
  thre_cr,
  thre_par,
  thre_anc,
  thre_biall,
  win.cof = 50,
  win.QTL = 30,
  folder,
  Rep_id,
  parallel,
  cluster
)

Arguments

mppData	mppData object for cross-specific, parental and ancestral model.
mppData_bi	mppData object for bi-allelic model.
par_clu	Parent clustering object.
thre_cr	Significance thresold for the cross-specific model.
thre_par	Significance threshold for the parental model.
thre_anc	Significance threshold for the ancestral model.
thre_biall	Significance threshold for the bi-allelic model.
win.cof	Minimum distance between two cofactors. Default = 50.
win.QTL	Minimum distance between two selected QTLs. Default = 30.
folder	Folder location where the results are saved.
Rep_id	Identifier for the specific replication.
cluster	Cluster object to run the analysis in parallel.
parllel	If the analysis should be run in parallel

Value

list with the QTLs detected with the four models.

Author(s)

Vincent Garin

vincentgarin/mppSim documentation built on Oct. 11, 2024, 3:18 p.m.